4UYT
X-ray structure of the N-terminal domain of the flocculin Flo11 from Saccharomyces cerevisiae
X-RAY DIFFRACTION
Crystallization
Crystalization Experiments | ||||
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ID | Method | pH | Temperature | Details |
1 | 6 | PROTEIN WAS CRYSTALLIZED FROM 100 MM NA3CITRATE2H2O, PH 6.0, 1 M LI2SO4, 4% PEG 4000; THEN SOAKED IN THIS CONDITION CONTAINING 25 % GLYCERIN ADDITIONALLY FOR CRYOPROTECTION. |
Crystal Properties | |
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Matthews coefficient | Solvent content |
2.49 | 50.68 |
Crystal Data
Unit Cell | |
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Length ( Å ) | Angle ( ˚ ) |
a = 30.43 | α = 90 |
b = 54.85 | β = 90 |
c = 120.15 | γ = 90 |
Symmetry | |
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Space Group | P 21 21 21 |
Diffraction
Diffraction Experiment | ||||||||||||||
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ID # | Crystal ID | Scattering Type | Data Collection Temperature | Detector | Detector Type | Details | Collection Date | Monochromator | Protocol | |||||
1 | 1 | x-ray | 100 | PIXEL | DECTRIS PILATUS 6M | MIRRORS | 2013-08-03 | M | SINGLE WAVELENGTH |
Radiation Source | |||||
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ID # | Source | Type | Wavelength List | Synchrotron Site | Beamline |
1 | SYNCHROTRON | BESSY BEAMLINE 14.1 | BESSY | 14.1 |
Data Collection
Overall | |||||||||||||||||||
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ID # | Resolution (High) | Resolution (Low) | Percent Possible (Observed) | R Merge I (Observed) | Net I Over Average Sigma (I) | Redundancy | Number Reflections (All) | Number Reflections (Observed) | Observed Criterion Sigma (F) | Observed Criterion Sigma (I) | B (Isotropic) From Wilson Plot | ||||||||
1 | 1.03 | 40.46 | 98.5 | 0.03 | 18.7 | 3.8 | 98507 | -3 |
Highest Resolution Shell | |||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ID # | Resolution (High) | Resolution (Low) | Percent Possible (All) | Percent Possible (Observed) | R Merge I (Observed) | Mean I Over Sigma (Observed) | Redundancy | Number Unique Reflections (All) | |||||||||||
1 | 1.03 | 1.09 | 93.6 | 0.38 | 2.6 | 2.6 |
Refinement
Statistics | |||||||||||||||||||
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Diffraction ID | Structure Solution Method | Cross Validation method | Resolution (High) | Resolution (Low) | Number Reflections (Observed) | Number Reflections (R-Free) | Percent Reflections (Observed) | R-Factor (Observed) | R-Work | R-Free | R-Free Selection Details | Mean Isotropic B | |||||||
X-RAY DIFFRACTION | MOLECULAR REPLACEMENT | THROUGHOUT | 1.03 | 40.54 | 97267 | 1239 | 98.31 | 0.12882 | 0.12863 | 0.14416 | RANDOM | 14.774 |
Temperature Factor Modeling | ||||||
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Anisotropic B[1][1] | Anisotropic B[1][2] | Anisotropic B[1][3] | Anisotropic B[2][2] | Anisotropic B[2][3] | Anisotropic B[3][3] | |
-0.15 | 0.65 | -0.49 |
RMS Deviations | |
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Key | Refinement Restraint Deviation |
r_sphericity_free | 56.703 |
r_dihedral_angle_2_deg | 37.244 |
r_sphericity_bonded | 14.238 |
r_dihedral_angle_3_deg | 10.14 |
r_dihedral_angle_1_deg | 6.631 |
r_rigid_bond_restr | 2.489 |
r_scbond_it | 1.831 |
r_angle_refined_deg | 1.43 |
r_mcangle_it | 1.397 |
r_mcbond_it | 1.078 |
Non-Hydrogen Atoms Used in Refinement | |
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Non-Hydrogen Atoms | Number |
Protein Atoms | 1416 |
Nucleic Acid Atoms | |
Solvent Atoms | 284 |
Heterogen Atoms | 10 |
Software
Software | |
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Software Name | Purpose |
REFMAC | refinement |
XDS | data reduction |
SCALA | data scaling |
PHENIX | phasing |